GEO DataSets

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.

Organism:

Notophthalmus viridescens; Pleurodeles waltl

Type:

Expression profiling by high throughput sequencing

Platforms:

GPL32588 GPL32009

21 Samples

Download data

(Submitter supplied) Previous studies indicated that macrophages play a role during lens regeneration in newts, but their function has not been tested experimentally. Here we generated a transgenic newt reporter line in which macrophages can be visualized in vivo. Using this new tool, we analyzed the location of macrophages during lens regeneration. We uncovered early gene expression changes using bulk RNAseq in two newt species, Notophthalmus viridescens and Pleurodeles waltl. more...

Organism:

Notophthalmus viridescens

Type:

Expression profiling by high throughput sequencing

Platform:

GPL32588

12 Samples

Download data: CSV, FASTA

(Submitter supplied) Previous studies indicated that macrophages play a role during lens regeneration in newts, but their function has not been tested experimentally. Here we generated a transgenic newt reporter line in which macrophages can be visualized in vivo. Using this new tool, we analyzed the location of macrophages during lens regeneration. We uncovered early gene expression changes using bulk RNAseq in two newt species, Notophthalmus viridescens and Pleurodeles waltl. more...

Organism:

Pleurodeles waltl

Type:

Expression profiling by high throughput sequencing

Platform:

GPL32009

9 Samples

Download data: CSV, FASTA

(Submitter supplied) To investigate the molecular basis of senescence-induced dedifferentiation, we performed RNAseq on control proliferating cells (DMSO only) and etoposide-induced senescent cells to profile senescence induction. Additionally, we performed RNAseq on purified populations of differentiated myotubes derived from untreated A1 cells to investigate differentiation, as well as myotubes subsequently induced to dedifferentiate, either by serum exposure (10% FCS) or by exposure to 48 hour conditioned media from senescent cells (including proliferating cell conditioned media controls). more...

Organism:

Notophthalmus viridescens

Type:

Expression profiling by high throughput sequencing

Platform:

GPL32588

18 Samples

Download data: CSV

(Submitter supplied) The evolution of advanced cognition in vertebrates is associated with the expansion of specialized areas in the forebrain (the six-layered neocortex in mammals and the dorsal ventricular ridge in birds and reptiles). Both areas exhibit complementary higher order brain functions, but it remains debated whether they developed convergently, or descended from a brain region already present in the last common ancestor of amniotes. more...

Organism:

Pleurodeles waltl

Type:

Expression profiling by high throughput sequencing

Platform:

GPL32009

4 Samples

Download data: RDS

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.

Organism:

Pleurodeles waltl

Type:

Expression profiling by high throughput sequencing

Platform:

GPL32009

14 Samples

Download data: FASTA, TXT

(Submitter supplied) The evolution of advanced cognition in vertebrates is associated with the expansion of specialized areas in the forebrain (the six-layered neocortex in mammals and the dorsal ventricular ridge in birds and reptiles). Both areas exhibit complementary higher order brain functions, but it remains debated whether they developed convergently, or descended from a brain region already present in the last common ancestor of amniotes. more...

Organism:

Pleurodeles waltl

Type:

Expression profiling by high throughput sequencing

Platform:

GPL32009

2 Samples

Download data: RDS

(Submitter supplied) The evolution of advanced cognition in vertebrates is associated with the expansion of specialized areas in the forebrain (the six-layered neocortex in mammals and the dorsal ventricular ridge in birds and reptiles). Both areas exhibit complementary higher order brain functions, but it remains debated whether they developed convergently, or descended from a brain region already present in the last common ancestor of amniotes. more...

Organism:

Pleurodeles waltl

Type:

Expression profiling by high throughput sequencing

Platform:

GPL32009

4 Samples

Download data: RDS

(Submitter supplied) The evolution of advanced cognition in vertebrates is associated with the expansion of specialized areas in the forebrain (the six-layered neocortex in mammals and the dorsal ventricular ridge in birds and reptiles). Both areas exhibit complementary higher order brain functions, but it remains debated whether they developed convergently, or descended from a brain region already present in the last common ancestor of amniotes. more...

Organism:

Pleurodeles waltl

Type:

Expression profiling by high throughput sequencing

Platform:

GPL32009

4 Samples

Download data: RDS

(Submitter supplied) The evolution of advanced cognition in vertebrates is associated with the expansion of specialized areas in the forebrain (the six-layered neocortex in mammals and the dorsal ventricular ridge in birds and reptiles). Both areas exhibit complementary higher order brain functions, but it remains debated whether they developed convergently, or descended from a brain region already present in the last common ancestor of amniotes. more...

Organism:

Pleurodeles waltl

Type:

Expression profiling by high throughput sequencing

Platform:

GPL32009

4 Samples

Download data: RDS

(Submitter supplied) The evolution of advanced cognition in vertebrates is associated with the expansion of specialized areas in the forebrain (the six-layered neocortex in mammals and the dorsal ventricular ridge in birds and reptiles). Both areas exhibit complementary higher order brain functions, but it remains debated whether they developed convergently, or descended from a brain region already present in the last common ancestor of amniotes. more...

Organism:

Pleurodeles waltl

Type:

Expression profiling by high throughput sequencing

Platform:

GPL32009

6 Samples

Download data: RDS

(Submitter supplied) The evolution of advanced cognition in vertebrates is associated with the expansion of specialized areas in the forebrain (the six-layered neocortex in mammals and the dorsal ventricular ridge in birds and reptiles). Both areas exhibit complementary higher order brain functions, but it remains debated whether they developed convergently, or descended from a brain region already present in the last common ancestor of amniotes. more...

Organism:

Pleurodeles waltl

Type:

Expression profiling by high throughput sequencing

Platform:

GPL32009

4 Samples

Download data: RDS

(Submitter supplied) The evolution of advanced cognition in vertebrates is associated with the expansion of specialized areas in the forebrain (the six-layered neocortex in mammals and the dorsal ventricular ridge in birds and reptiles). Both areas exhibit complementary higher order brain functions, but it remains debated whether they developed convergently, or descended from a brain region already present in the last common ancestor of amniotes. more...

Organism:

Pleurodeles waltl

Type:

Expression profiling by high throughput sequencing

Platform:

GPL32009

4 Samples

Download data: RDS

(Submitter supplied) The evolution of advanced cognition in vertebrates is associated with the expansion of specialized areas in the forebrain (the six-layered neocortex in mammals and the dorsal ventricular ridge in birds and reptiles). Both areas exhibit complementary higher order brain functions, but it remains debated whether they developed convergently, or descended from a brain region already present in the last common ancestor of amniotes. more...

Organism:

Pleurodeles waltl

Type:

Expression profiling by high throughput sequencing

Platform:

GPL32009

6 Samples

Download data: RDS

(Submitter supplied) We mapped DNA methylation in 580 animal species (535 vertebrates, 45 invertebrates), resulting in 2443 genome-scale, base-resolution DNA methylation profiles of primary tissue samples from various organs. Reference-genome independent analysis of this comprehensive dataset defined a “genomic code” of DNA methylation, which allowed us to predict global and locus-specific DNA methylation from the DNA sequence within and across species. more...

Organism:

Mya arenaria; Loligo vulgaris; Strongylocentrotus droebachiensis; Holothuria; Ciona intestinalis; Leucoraja erinacea; Lophius piscatorius; Hemitripterus americanus; Cyclopterus lumpus; Thunnus albacares; Testudinidae; Varanus; Gekkonidae; Boa constrictor; Struthio camelus; Sturnus vulgaris; Phoenicopteriformes; Ara; Ara ararauna; Aptenodytes patagonicus; Petauridae; Dasypodidae; Scandentia; Varecia; Saguinus; Macaca sylvanus; Papio hamadryas; Theropithecus gelada; Canis lupus familiaris; Nasua; Martes foina; Mustela putorius; Felis silvestris; Phocidae; Equus; Equus zebra; Sus scrofa; Bison bonasus; Capra; Apodemus sylvaticus; Lagostomus maximus; Myocastor coypus; Saccoglossus kowalevskii; Psittacus; Castoridae; Styela montereyensis; Ardea; Buteo; Buteo buteo; Balearica pavonina; Grus japonensis; Corvus; Bubo bubo; Carcharias taurus; Axis axis; Vicugna; Hippoglossoides elassodon; Trachemys scripta elegans; Leptoptilos crumeniferus; Gypaetus; Morone saxatilis; Hippoglossoides platessoides; Capromys pilorides; Petaurus breviceps; Suricata; Hemitragus; Chloris chloris; Lepas anatifera; Chamaeleonidae; Lutjanus mahogoni; Circus cyaneus; Pithecia pithecia; Patiria miniata; Geochelone; Cyclura; Apodemus flavicollis; Sciurus vulgaris; Centropomus robalito; Cyclura cornuta; Cornufer guentheri; Antidorcas; Antilope; Kobus leche; Agapornis canus; Agapornis lilianae; Agapornis taranta; Varanus gouldii; Scincidae; Sebastes atrovirens; Sebastes caurinus; Sebastes hopkinsi; Sebastes miniatus; Geoemyda spengleri; Mullus surmuletus; Corucia zebrata; Picus viridis; Nothobranchius furzeri; Fromia; Asio otus; Strix aluco; Trioceros jacksonii; Theloderma; Nectariniidae; Ploceus cucullatus; Spinus spinus; Ctenochaetus striatus; Urophycis tenuis; Caloenas nicobarica; Euplectes; Coracias garrulus; Pisaster giganteus; Pleurogrammus monopterygius; Glyptocephalus zachirus; Clavelina picta; Mungos mungo; Accipiter nisus; Fistularia commersonii; Cygnus cygnus; Anoplopoma fimbria; Uromastyx ocellata; Stichopus chloronotus; Trachyphonus erythrocephalus; Coris gaimard; Pytilia melba; Potamochoerus porcus; Ecteinascidia turbinata; Pachyuromys; Holothuria atra; Sebastes semicinctus; Podothecus accipenserinus; Falco cherrug; Pitta moluccensis; Camelus ferus; Ptilinopus pulchellus; Chiroxiphia pareola; Sphoeroides maculatus; Astrochelys yniphora; Boltenia echinata; Echinarachnius parma; Alitta succinea; Bodianus diana; Cantherhines pardalis; Cheilodipterus quinquelineatus; Tetrastes bonasia; Parapercis xanthozona; Lumpenus lampretaeformis; Pseudanthias ventralis; Xenagama wilmsi; Loweina rara; Coracias cyanogaster; Vanellus armatus; Oxycercichthys veliferus; Onuxodon fowleri; Cirrhilabrus roseafascia; Copsychus malabaricus; Hypanus americanus; Riftia pachyptila; Homarus americanus; Pisaster brevispinus; Negaprion brevirostris; Danio rerio; Esox lucius; Gadus morhua; Myzopsetta ferruginea; Chelydra serpentina; Emydidae; Graptemys; Varanus exanthematicus; Naja; Vipera ammodytes; Dromaius novaehollandiae; Columba livia; Falco peregrinus; Haliaeetus albicilla; Serinus; Phalacrocorax carbo; Macropodidae; Erinaceidae; Leontocebus fuscicollis; Saguinus mystax; Cercopithecus; Vulpes vulpes; Ursus; Ursus arctos; Procyon lotor; Meles meles; Felis catus; Tayassuidae; Cervidae; Cervus nippon; Muntiacus; Ammotragus; Bos; Boselaphus tragocamelus; Bubalus; Cricetinae; Caviidae; Hydrochoerus hydrochaeris; Heterocephalus; Macroscelidea; Macroscelides proboscideus; Dolichotis; Duttaphrynus melanostictus; Corvus corone; Strigiformes; Vicugna pacos; Yinpterochiroptera; Acinonyx; Colobus guereza; Glyptocephalus cynoglossus; Erethizon; Nyctereutes; Trachemys; Stenotomus chrysops; Zosteropidae; Strix uralensis; Hippotragus; Vidua paradisaea; Cebinae; Phascolarctos cinereus; Leiocephalus; Carollia perspicillata; Milvus milvus; Cynomys; Psammomys obesus; Sylvia atricapilla; Python regius; Pogona barbata; Aquila heliaca; Eurypygidae; Jacanidae; Lissemys punctata; Ecsenius; Agapornis; Mimus polyglottos; Canis aureus; Tiliqua scincoides; Sebastes mystinus; Sebastes paucispinis; Pomatomus saltatrix; Ariopsis felis; Abronia anzuetoi; Eudyptes chrysocome; Pomacentrus coelestis; Terrapene; Lampropeltis; Embiotoca jacksoni; Geronticus eremita; Fromia indica; Ducula bicolor; Tockus nasutus; Rhinoptera bonasus; Probosciger aterrimus; Monacanthidae; Halichoeres trimaculatus; Phyllopteryx taeniolatus; Cyanocompsa brissonii; Tringa totanus; Chloropsis; Tockus alboterminatus; Tockus deckeni; Chamaeleo calyptratus; Gymnothorax moringa; Centropristis striata; Erpeton; Laemanctus; Labroides bicolor; Cuora mccordi; Amazona agilis; Histrio histrio; Zenopsis conchifer; Uraeginthus bengalus; Bathymaster signatus; Pseudobalistes fuscus; Trachemys scripta scripta; Sebastes borealis; Lutjanus quinquelineatus; Lepidopsetta polyxystra; Oxycheilinus digramma; Giraffa giraffa; Pleoticus muelleri; Ovis orientalis; Geopelia placida; Photoblepharon palpebratum; Calyptocephallela gayi; Scolopsis bilineata; Atherinomorus vaigiensis; Cheilopogon pinnatibarbatus californicus; Leptoclinus maculatus; Coris caudimacula; Gadus chalcogrammus; Doryteuthis pealeii; Crocodylia; Ophioderma panamensis; Notamacropus rufogriseus; Cirrhilabrus lineatus; Octopus vulgaris; Lytechinus variegatus; Squalus acanthias; Mustelus canis; Cyprinus carpio; Salmo salar; Salmo trutta; Pollachius virens; Zoarces americanus; Ambystoma; Iguanidae; Tiliqua rugosa; Natrix tessellata; Crotalus; Dendrocygna viduata; Charadriidae; Ciconia ciconia; Gallus; Coturnix coturnix; Parus major; Sarcophilus; Macropus; Tupaia; Lemur; Papio; Ailurus fulgens; Mustelidae; Lutra lutra; Mustela; Panthera onca; Panthera tigris; Rhinocerotidae; Cervus elaphus; Capra aegagrus; Connochaetes; Lepus europaeus; Marmota; Acomys; Mus musculus; Hystricidae; Melopsittacus; Tamias; Magallana gigas; Molgula citrina; Botryllus schlosseri; Heleophrynidae; Dama dama; Yangochiroptera; Leontopithecus; Pelecanus; Hippotragus equinus; Ostrea edulis; Cricetomyinae; Uromastyx; Cynictis; Glis glis; Oplurus; Bothriechis schlegelii; Brachylophus; Passer domesticus; Jaculus; Sauromalus; Python molurus; Acanthosaura; Shinisaurus crocodilurus; Plegadis falcinellus; Eliomys quercinus; Corvus corax; Coliiformes; Agapornis personatus; Loriculus galgulus; Leptailurus; Lepus timidus; Astrochelys radiata; Tragelaphus angasii; Sebastes constellatus; Sebastolobus alascanus; Paracanthurus hepatus; Corvus frugilegus; Dascyllus aruanus; Coryphaenoides acrolepis; Testudo hermanni; Paracirrhites forsteri; Scyliorhinus retifer; Nardoa novaecaledoniae; Chaetodon lineolatus; Chaetodon lunula; Buteo lagopus; Batoidea; Loweina terminata; Penaeus; Caiman yacare; Cacatua alba; Paroedura picta; Rhacophorus reinwardtii; Recurvirostra avosetta; Irena puella; Bycanistes bucinator; Elops affinis; Philomachus; Zamenis longissimus; Ascidiella aspersa; Tamiops; Amblyglyphidodon leucogaster; Rhinecanthus aculeatus; Padda oryzivora; Hemilepidotus jordani; Triglops scepticus; Oxylebius pictus; Tockus flavirostris; Taurotragus; Cephalopholis miniata; Aotidae; Sebastes chrysomelas; Pterocaesio marri; Notamacropus parma; Lamprotornis chalcurus; Boltenia ovifera; Rhabdamia gracilis; Chrysopelea; Pristigenys alta; Salvelinus umbla; Holothuria cinerascens; Grus paradisea; Lyrurus tetrix; Ammodytes dubius; Cryptacanthodes maculatus; Prionotus carolinus; Ostorhinchus moluccensis; Apostichopus parvimensis; Illex illecebrosus; Strongylocentrotus purpuratus; Branchiostoma floridae; Galeocerdo cuvier; Callorhinchus milii; Clupea harengus; Salvelinus alpinus; Xiphias gladius; Ambystoma mexicanum; Heloderma; Casuarius casuarius; Rhea americana; Anas platyrhynchos; Ciconiidae; Columbidae; Accipiter gentilis; Circus aeruginosus; Acryllium vulturinum; Gallus gallus; Perdix perdix; Phasianus colchicus; Coturnix delegorguei; Spheniscus humboldti; Pteropus; Callithrix jacchus; Saguinus oedipus; Saguinus imperator; Macaca; Colobus polykomos; Pongo; Canis lupus; Panthera leo; Panthera pardus; Puma concolor; Tapirus; Sus scrofa domesticus; Camelus dromedarius; Lama glama; Tragulus javanicus; Capreolus capreolus; Rangifer tarandus; Ovis aries; Kobus; Capricornis; Oryctolagus cuniculus; Spermophilus; Cricetus; Rattus norvegicus; Rattus rattus; Amazona; Lynx lynx; Nymphicus hollandicus; Tinca tinca; Dolichotis patagonum; Incilius alvarius; Chauna torquata; Rollulus; Capromyidae; Vipera berus; Scopus umbretta; Rupicapra rupicapra; Pythonidae; Pelecanus crispus; Cucumaria frondosa; Coccothraustes; Polychrus marmoratus; Cygnus melancoryphus; Erythrura; Phodopus campbelli; Neoniphon sammara; Eunectes; Haliaeetus leucocephalus; Cariamidae; Macaca silenus; Musophagidae; Garrulus glandarius; Leontopithecus chrysomelas; Upupa epops; Paralichthys dentatus; Nanger dama; Myoxocephalus octodecemspinosus; Tragelaphus spekii; Sebastes ovalis; Hypselecara coryphaenoides; Spatula querquedula; Equus asinus asinus; Elephas maximus indicus; Falco tinnunculus; Tetrao urogallus; Testudo kleinmanni; Hoplobatrachus tigerinus; Musophaga; Osteoglossum bicirrhosum; Ptilinopus; Athene noctua; Polypedates otilophus; Correlophus ciliatus; Rhinogobiops nicholsii; Otaria; Leucoraja ocellata; Pycnonotus barbatus; Psarisomus dalhousiae; Cynoscion regalis; Acanthurus triostegus; Alectis ciliaris; Lethrinus atkinsoni; Hippoglossina oblonga; Scophthalmus aquosus; Gallicolumba; Amandava subflava; Furcifer pardalis; Choerodon fasciatus; Coronella austriaca; Thyonella gemmata; Neurergus; Diodon hystrix; Canis lupus lycaon; Euplectes orix; Chromis punctipinnis; Haemulon flavolineatum; Semicossyphus pulcher; Dinemellia; Aplonis panayensis; Hemisphaeriodon; Halocynthia pyriformis; Phloeomys; Cuora mouhotii; Merops apiaster; Pseudanthias; Ambystoma andersoni; Malacochersus; Cyanoliseus patagonus; Ostorhinchus aureus; Zaprora silenus; Platax teira; Saimiriinae; Pseudomonacanthus peroni; Sebastes norvegicus; Dracaena guianensis; Aonyx cinereus; Merops bullockoides; Ammodytes hexapterus; Sufflamen chrysopterum; Cyclopsitta diophthalma; Centropyge heraldi; Parupeneus spilurus; Vermilingua; Folivora; Lethenteron camtschaticum; Callocephalon fimbriatum; Ophiopteris papillosa; Ophiothrix spiculata; Rhyticeros narcondami; Ostorhinchus rueppellii

Type:

Methylation profiling by high throughput sequencing

580 related Platforms

3023 Samples

Download data: BED

(Submitter supplied) Heart disease is the leading cause of mortality worldwide due to the limited regenerative capacity of the mammalian heart. Myocardial infarction causes massive cardiomyocyte apoptosis that is replaced by a fibrotic scar. In contrast to mammals, certain vertebrates such as fish and amphibians can regenerate cardiac muscle without scarring. Here, we established a cryoinjury model in the salamander species, Pleurodeles waltl. more...

Organism:

Pleurodeles waltl

Type:

Expression profiling by high throughput sequencing

Platform:

GPL30441

3067 Samples

Download data: CSV

(Submitter supplied) MicroRNA sequencing using Ion Torrent Proton platform of the undamaged heart of the red spotted newt Notophthalmus viridescens. MicroRNAS were identified using MIRPIPE

Organism:

Notophthalmus viridescens

Type:

Non-coding RNA profiling by high throughput sequencing

Platform:

GPL20285

1 Sample

Download data: TXT

(Submitter supplied) We have developed a standardized and reproducible heart resection/regeneration model system in the red-spotted newt. In order to ascertain the involvement of microRNAs in this amazing process, we made and sequenced cDNA libraries for microRNAs in order to provide sequence data that we could use in further quantitative and qualitative studies.

Organism:

Notophthalmus viridescens

Type:

Non-coding RNA profiling by high throughput sequencing

Platform:

GPL17099

3 Samples

Download data: TXT

(Submitter supplied) The adult vertebrate red spotted newt is a champion of regeneration, demonstrating an amazing ability to regenerate damaged organs and tissues back to an uninjured state without the formation of scar or reduction in function. By developing a novel cardiac resection strategy, our group recently demonstrated that newt hearts could morphologically and functionally regenerate, without scarring, within a period of 2-3 months following injury. more...

Organism:

Notophthalmus viridescens; Danio rerio; Pipidae; Homo sapiens

Type:

Non-coding RNA profiling by array

Platform:

GPL16689

3 Samples

Download data: TXT